MD03G1127100.v1.1

Protein UPSTREAM OF FLC isoform X1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr03
OG0006878
Physical Location & Seq
Forward (+)
12204980 .. 12208048
3069 bp
Loading structure...
UTR
Exon/CDS
Intron
MD03G1127100.v1.1.491

Sequence Viewer

Length: 1566 bp
ATGGAGGGTAGGATGAAGAAGTACAGCCAAGTGAGTCCGGAGAGGGCGAAAGTGTGGACTGAGAAGTCGTCCAAGTACCATCAGAACCGAAAAGTCCCGGTGGTTTACTATCTCTCACGAAACCGGCAGCTTGAACACCCCCATTTCATGGAGGTTCCTGTAACCTCTCCCCAAGGGCTCTACCTCAAAGATGTGATTAATAGGCTTAATTCTCTGAGGGGCAGAGGCATGGCTTCCATGTATTCATGGTCTTCTAAGAGAAACTATAAAGGTGGTTATGTTTGGCATGATCTCTCTGAAGGTGATCTGATTCCTCCGGCTCATGGAAATGAGTACGTCCTTAAAGGTTCTGAGCTCTTTGATGAATCGAATTCGGATCGGTTTAGCCCAGTGGCAGAAATTAAAATCCAGAACTTGAAACAGTTACCAGAACCAGCATCTTCTAGAAGCCAAGATGATTCTTCATCGTCGTCAAGTTTGAATGGGAAGGAAACAAAGCATTCTCAAGAAGATGAGCTCTCTCCTCCGGTTCAACGTCCCGAAGGCTCTTCTAGCGCTTCTCCAGAGTCTACAGTCGGAAAGAATTCTACTTGGGGGGGTTCACTGAGCTTGACAGATTACAAGATTTACAAGAGTGACGGTTTAGCTGATGCTTCCACGCAGACAGAAGAAAATGGGAACAAACCTAAAGCATCAGAAACTTGTACAAGAGGTGTTTCCACAGATGATGGGTCATTAGAACCGGATTGCAGTTATTATCCTGATCGAGTGCCTTGTGTGAAAGAGAACTCTGAGATTCGCAGTGATTCAGTTTCTCCTCCTCTGTCATCCCCCAGCCCATCTTCGTCAGGTGGGAAGACTGAAACTTTGGAATCACTTATTAGGGCTGATGTTAGTAAACTCAACAGTTTTAGAATAGCTGAAGAGGAAGACGTTCGAATGCAAAACAATCCAAGGGTTAAGGCTACTAATGTACTTATGCAACTCATATCATGTGGTTCAATATCAGTGAAGGATCACAATTTTGGTCTTATTCCAACCTACAAGCCCAGGTTTTCCCATTCCAATTTCCACTCCCCATTATTCTCTACTAAAGTAATGCTAGGAGAGCTAGACTGCCTTTCAGAGAATCCAAGGCTAATGGGTTTGAGATTGGAAGATAAAGAATATTTTAGTGGGAGCTTGATTGAGACTAAAATGCTCAAGGAGGAAGATGGATGTACAGCTCTAAAACGATCATCATCATACAATGCTGACAGGAGTTGCAAGAAGCTGGATTCAGAAGAGGACAAAGAGGAGTCTACGTCAGGACGTTCAAAATGCATCCCAATATCAATCAAAGCTTCGCTGAACAAGCAACCGCGAAGTGAGTCTATGAGATCCCCCATTTCCGATAAACCAAGGAACTCCTCAGATGGACTTGATGGTGCACATATCAATACCCACTGCATATCCAATGGAGTTAGTAAAAGAATCACAGACCCTTCATCTCTTAAAAAGCAATCAAAAAGGTTAGATTCATTTAGAGAAGAGAAGGAGAAGGTGATCAAAATCGAAGAAAGTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DUF966

Protein Analysis

522

Amino Acids

58.02

Weight (kDa)

7.56

Isoelectric Point (pI)

60.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SOK PF06136 32 - 120 5.5e-48 SOSEKI protein DIX-like domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 64
AccB7I CCANNNNNTGG 1 cut(s) 148
AccI GTMKAC 2 cut(s) 569, 1301
AccII CGCG 1 cut(s) 1363
AccIII TCCGGA 1 cut(s) 37
AciI CCGC 1 cut(s) 1361
AclWI GGATC 3 cut(s) 384, 1023, 1374
AcsI RAATTY 2 cut(s) 370, 583
AcuI CTGAAG 2 cut(s) 318, 942
AfaI GTAC 6 cut(s) 23, 77, 335, 706, 975, 1222
AfeI AGCGCT 1 cut(s) 556
AfiI CCNNNNNNNGG 2 cut(s) 148, 323
AgsI TTSAA 6 cut(s) 134, 418, 481, 533, 1002, 1317
AjnI CCWGG 1 cut(s) 1049
Alw21I GWGCWC 3 cut(s) 357, 519, 1432
Alw26I GTCTC 1 cut(s) 1184
Alw44I GTGCAC 1 cut(s) 1428
AlwI GGATC 3 cut(s) 384, 1023, 1374
Aor13HI TCCGGA 1 cut(s) 37
Aor51HI AGCGCT 1 cut(s) 556
ApaLI GTGCAC 1 cut(s) 1428
ApeKI GCWGC 1 cut(s) 127
ApoI RAATTY 2 cut(s) 370, 583
ArsI GACNNNNNNTTYG 2 cut(s) 850, 882
AseI ATTAAT 1 cut(s) 198
Asp700I GAANNNNTTC 2 cut(s) 583, 933
AspLEI GCGC 1 cut(s) 557
AsuC2I CCSGG 1 cut(s) 98
AsuHPI GGTGA 2 cut(s) 314, 1555
AsuII TTCGAA 1 cut(s) 937
BaeGI GKGCMC 1 cut(s) 1432
BanII GRGCYC 3 cut(s) 180, 357, 519
BbsI GAAGAC 3 cut(s) 243, 863, 936
Bbv12I GWGCWC 3 cut(s) 357, 519, 1432
BbvI GCAGC 1 cut(s) 139
BccI CCATC 6 cut(s) 87, 722, 847, 1208, 1409, 1418
BciT130I CCWGG 1 cut(s) 1051
BclI TGATCA 1 cut(s) 1545
BcnI CCSGG 1 cut(s) 98
BcoDI GTCTC 1 cut(s) 1184
BfaI CTAG 4 cut(s) 444, 552, 1103, 1112
BfmI CTRYAG 1 cut(s) 570
BfoI RGCGCY 1 cut(s) 558
BisI GCNGC 1 cut(s) 128
BlsI GCNGC 1 cut(s) 129
Bme1390I CCNGG 2 cut(s) 98, 1051
BmiI GGNNCC 1 cut(s) 156
BmrFI CCNGG 2 cut(s) 98, 1051
BmrI ACTGGG 1 cut(s) 383
BmsI GCATC 4 cut(s) 446, 640, 701, 1332
BmuI ACTGGG 1 cut(s) 383
BpiI GAAGAC 3 cut(s) 243, 863, 936
BpmI CTGGAG 1 cut(s) 546
Bpu14I TTCGAA 1 cut(s) 937
BpuEI CTTGAG 2 cut(s) 489, 1187
BpuMI CCSGG 1 cut(s) 98
BsaBI GATNNNNATC 2 cut(s) 1240, 1550
BsaJI CCNNGG 5 cut(s) 172, 953, 1049, 1133, 1400
BsaWI WCCGGW 3 cut(s) 37, 526, 742
BsaXI ACNNNNNCTCC 2 cut(s) 1289, 1319
Bsc4I CCNNNNNNNGG 2 cut(s) 148, 323
Bse118I RCCGGY 1 cut(s) 123
Bse1I ACTGG 1 cut(s) 389
Bse8I GATNNNNATC 2 cut(s) 1240, 1550
BseAI TCCGGA 1 cut(s) 37
BseBI CCWGG 1 cut(s) 1051
BseDI CCNNGG 5 cut(s) 172, 953, 1049, 1133, 1400
BseGI GGATG 4 cut(s) 18, 827, 1223, 1323
BseJI GATNNNNATC 2 cut(s) 1240, 1550
BseLI CCNNNNNNNGG 2 cut(s) 148, 323
BseMII CTCAG 6 cut(s) 51, 206, 342, 596, 783, 1425
BseNI ACTGG 1 cut(s) 389
BseRI GAGGAG 5 cut(s) 513, 807, 810, 1310, 1399
BseSI GKGCMC 1 cut(s) 1432
BseXI GCAGC 1 cut(s) 139
BseYI CCCAGC 1 cut(s) 833
Bsh1236I CGCG 1 cut(s) 1363
BsiHKAI GWGCWC 3 cut(s) 357, 519, 1432
BsiSI CCGG 6 cut(s) 38, 98, 124, 317, 527, 743
BslFI GGGAC 2 cut(s) 80, 522
BslI CCNNNNNNNGG 2 cut(s) 148, 323
BsmAI GTCTC 1 cut(s) 1184
BsmFI GGGAC 2 cut(s) 80, 522
BsmI GAATGC 2 cut(s) 499, 945
Bsp119I TTCGAA 1 cut(s) 937
Bsp1286I GDGCHC 4 cut(s) 180, 357, 519, 1432
Bsp13I TCCGGA 1 cut(s) 37
Bsp1407I TGTACA 2 cut(s) 704, 1220
Bsp143I GATC 8 cut(s) 289, 304, 376, 763, 1015, 1235, 1379, 1545
BspACI CCGC 1 cut(s) 1361
BspCNI CTCAG 6 cut(s) 52, 207, 343, 597, 784, 1424
BspEI TCCGGA 1 cut(s) 37
BspFNI CGCG 1 cut(s) 1363
BspLI GGNNCC 1 cut(s) 156
BspPI GGATC 3 cut(s) 384, 1023, 1374
BspQI GCTCTTC 1 cut(s) 553
BspT104I TTCGAA 1 cut(s) 937
BsrFI RCCGGY 1 cut(s) 123
BsrGI TGTACA 2 cut(s) 704, 1220
BsrI ACTGG 1 cut(s) 389
BssAI RCCGGY 1 cut(s) 123
BssECI CCNNGG 5 cut(s) 172, 953, 1049, 1133, 1400
BssMI GATC 8 cut(s) 289, 304, 376, 763, 1015, 1235, 1379, 1545
BssT1I CCWWGG 4 cut(s) 172, 953, 1133, 1400
Bst2UI CCWGG 1 cut(s) 1051
Bst4CI ACNGT 4 cut(s) 423, 574, 641, 908
Bst6I CTCTTC 4 cut(s) 553, 918, 1278, 1524
BstAUI TGTACA 2 cut(s) 704, 1220
BstBI TTCGAA 1 cut(s) 937
BstDEI CTNAG 7 cut(s) 60, 215, 255, 351, 605, 792, 1411
BstF5I GGATG 4 cut(s) 18, 827, 1223, 1323
BstFNI CGCG 1 cut(s) 1363
BstH2I RGCGCY 1 cut(s) 558
BstHHI GCGC 1 cut(s) 557
BstKTI GATC 8 cut(s) 292, 307, 379, 766, 1018, 1238, 1382, 1548
BstMAI GTCTC 1 cut(s) 1184
BstMBI GATC 8 cut(s) 289, 304, 376, 763, 1015, 1235, 1379, 1545
BstMWI GCNNNNNNNGC 3 cut(s) 552, 1108, 1354
BstNI CCWGG 1 cut(s) 1051
BstSCI CCNGG 2 cut(s) 96, 1049
BstSFI CTRYAG 1 cut(s) 570
BstSLI GKGCMC 1 cut(s) 1432
BstUI CGCG 1 cut(s) 1363
BstV1I GCAGC 1 cut(s) 139
BstV2I GAAGAC 3 cut(s) 243, 863, 936
BstX2I RGATCY 1 cut(s) 1379
BstYI RGATCY 1 cut(s) 1379
BtsCI GGATG 4 cut(s) 18, 827, 1223, 1323
BtsI GCAGTG 2 cut(s) 808, 1444
BtsIMutI CAGTG 5 cut(s) 396, 602, 808, 1014, 1444
CfoI GCGC 1 cut(s) 557
Cfr10I RCCGGY 1 cut(s) 123
Csp6I GTAC 6 cut(s) 22, 76, 334, 705, 974, 1221
CviAII CATG 7 cut(s) 148, 229, 238, 246, 287, 323, 993
CviQI GTAC 6 cut(s) 22, 76, 334, 705, 974, 1221
DdeI CTNAG 7 cut(s) 60, 215, 255, 351, 605, 792, 1411
DpnI GATC 8 cut(s) 291, 306, 378, 765, 1017, 1237, 1381, 1547
DpnII GATC 8 cut(s) 289, 304, 376, 763, 1015, 1235, 1379, 1545
DrdI GACNNNNNNGTC 1 cut(s) 64
DseDI GACNNNNNNGTC 1 cut(s) 64
Eam1104I CTCTTC 4 cut(s) 553, 918, 1278, 1524
EarI CTCTTC 4 cut(s) 553, 918, 1278, 1524
Ecl136II GAGCTC 2 cut(s) 355, 517
Eco130I CCWWGG 4 cut(s) 172, 953, 1133, 1400
Eco24I GRGCYC 3 cut(s) 180, 357, 519
Eco47III AGCGCT 1 cut(s) 556
Eco53kI GAGCTC 2 cut(s) 355, 517
Eco57I CTGAAG 2 cut(s) 318, 942
EcoICRI GAGCTC 2 cut(s) 355, 517
EcoRI GAATTC 2 cut(s) 370, 583
EcoRII CCWGG 1 cut(s) 1049
EcoT14I CCWWGG 4 cut(s) 172, 953, 1133, 1400
EcoT22I ATGCAT 1 cut(s) 1325
EcoT38I GRGCYC 3 cut(s) 180, 357, 519
ErhI CCWWGG 4 cut(s) 172, 953, 1133, 1400
FaeI CATG 7 cut(s) 151, 232, 241, 249, 290, 326, 996
FaqI GGGAC 2 cut(s) 80, 522
FatI CATG 7 cut(s) 147, 228, 237, 245, 286, 322, 992
FbaI TGATCA 1 cut(s) 1545
FblI GTMKAC 2 cut(s) 569, 1301
Fnu4HI GCNGC 1 cut(s) 128
FokI GGATG 4 cut(s) 25, 814, 1230, 1310
FriOI GRGCYC 3 cut(s) 180, 357, 519
Fsp4HI GCNGC 1 cut(s) 128
FspBI CTAG 4 cut(s) 444, 552, 1103, 1112
GlaI GCGC 1 cut(s) 556
GluI GCNGC 1 cut(s) 128
GsaI CCCAGC 1 cut(s) 837
GsuI CTGGAG 1 cut(s) 546
HaeII RGCGCY 1 cut(s) 558
HapII CCGG 6 cut(s) 38, 98, 124, 317, 527, 743
HhaI GCGC 1 cut(s) 557
Hin1II CATG 7 cut(s) 151, 232, 241, 249, 290, 326, 996
Hin6I GCGC 1 cut(s) 555
HinP1I GCGC 1 cut(s) 555
HindIII AAGCTT 1 cut(s) 1341
HpaII CCGG 6 cut(s) 38, 98, 124, 317, 527, 743
HphI GGTGA 2 cut(s) 314, 1555
Hpy166II GTNNAC 7 cut(s) 57, 106, 570, 602, 899, 1302, 1430
Hpy188III TCNNGA 9 cut(s) 38, 117, 409, 444, 506, 539, 563, 761, 1308
Hpy8I GTNNAC 7 cut(s) 57, 106, 570, 602, 899, 1302, 1430
Hpy99I CGWCG 1 cut(s) 472
HpyAV CCTTC 7 cut(s) 293, 481, 536, 1006, 1494, 1528, 1534
HpyCH4III ACNGT 4 cut(s) 423, 574, 641, 908
HpyCH4IV ACGT 5 cut(s) 336, 535, 933, 1304, 1312
HpyCH4V TGCA 7 cut(s) 750, 943, 982, 1266, 1323, 1430, 1449
HpyF10VI GCNNNNNNNGC 3 cut(s) 552, 1108, 1354
HpyF3I CTNAG 7 cut(s) 60, 215, 255, 351, 605, 792, 1411
HpySE526I ACGT 5 cut(s) 336, 535, 933, 1304, 1312
Hsp92II CATG 7 cut(s) 151, 232, 241, 249, 290, 326, 996
HspAI GCGC 1 cut(s) 555
Kpn2I TCCGGA 1 cut(s) 37
Ksp22I TGATCA 1 cut(s) 1545
Kzo9I GATC 8 cut(s) 289, 304, 376, 763, 1015, 1235, 1379, 1545
LguI GCTCTTC 1 cut(s) 553
LmnI GCTCC 1 cut(s) 1179
Lsp1109I GCAGC 1 cut(s) 139
LweI GCATC 4 cut(s) 446, 640, 701, 1332
MaeI CTAG 4 cut(s) 444, 552, 1103, 1112
MaeII ACGT 5 cut(s) 336, 535, 933, 1304, 1312
MaeIII GTNAC 3 cut(s) 160, 423, 635
MalI GATC 8 cut(s) 291, 306, 378, 765, 1017, 1237, 1381, 1547
MboI GATC 8 cut(s) 289, 304, 376, 763, 1015, 1235, 1379, 1545
MflI RGATCY 1 cut(s) 1379
MhlI GDGCHC 4 cut(s) 180, 357, 519, 1432
MluCI AATT 6 cut(s) 208, 370, 399, 583, 1021, 1066
MlyI GAGTC 4 cut(s) 43, 575, 1307, 1379
MmeI TCCRAC 2 cut(s) 556, 1061
Mph1103I ATGCAT 1 cut(s) 1325
MroI TCCGGA 1 cut(s) 37
MroXI GAANNNNTTC 2 cut(s) 583, 933
MseI TTAA 6 cut(s) 198, 207, 342, 402, 960, 1494
MslI CAYNNNNRTG 1 cut(s) 327
MspI CCGG 6 cut(s) 38, 98, 124, 317, 527, 743
MspR9I CCNGG 2 cut(s) 98, 1051
Mva1269I GAATGC 2 cut(s) 499, 945
MvaI CCWGG 1 cut(s) 1051
MvnI CGCG 1 cut(s) 1363
MwoI GCNNNNNNNGC 3 cut(s) 552, 1108, 1354
NciI CCSGG 1 cut(s) 98
NdeII GATC 8 cut(s) 289, 304, 376, 763, 1015, 1235, 1379, 1545
NlaIII CATG 7 cut(s) 151, 232, 241, 249, 290, 326, 996
NlaIV GGNNCC 1 cut(s) 156
NmuCI GTSAC 1 cut(s) 635
NsiI ATGCAT 1 cut(s) 1325
NspV TTCGAA 1 cut(s) 937
PciSI GCTCTTC 1 cut(s) 553
PctI GAATGC 2 cut(s) 499, 945
PdmI GAANNNNTTC 2 cut(s) 583, 933
PflMI CCANNNNNTGG 1 cut(s) 148
PkrI GCNGC 1 cut(s) 129
PleI GAGTC 4 cut(s) 42, 574, 1306, 1378
PpsI GAGTC 4 cut(s) 42, 574, 1306, 1378
PshBI ATTAAT 1 cut(s) 198
Psp124BI GAGCTC 2 cut(s) 357, 519
Psp6I CCWGG 1 cut(s) 1049
PspFI CCCAGC 1 cut(s) 833
PspGI CCWGG 1 cut(s) 1049
PspN4I GGNNCC 1 cut(s) 156
PsuI RGATCY 1 cut(s) 1379
RsaI GTAC 6 cut(s) 23, 77, 335, 706, 975, 1222
RsaNI GTAC 6 cut(s) 22, 76, 334, 705, 974, 1221
RseI CAYNNNNRTG 1 cut(s) 327
SacI GAGCTC 2 cut(s) 357, 519
SapI GCTCTTC 1 cut(s) 553
SaqAI TTAA 6 cut(s) 198, 207, 342, 402, 960, 1494
SatI GCNGC 1 cut(s) 128
Sau3AI GATC 8 cut(s) 289, 304, 376, 763, 1015, 1235, 1379, 1545
SchI GAGTC 4 cut(s) 43, 575, 1307, 1379
ScrFI CCNGG 2 cut(s) 98, 1051
SduI GDGCHC 4 cut(s) 180, 357, 519, 1432
SfaNI GCATC 4 cut(s) 446, 640, 701, 1332
SfcI CTRYAG 1 cut(s) 570
SfuI TTCGAA 1 cut(s) 937
SmiMI CAYNNNNRTG 1 cut(s) 327
SmlI CTYRAG 2 cut(s) 504, 1202
SmoI CTYRAG 2 cut(s) 504, 1202
Sse9I AATT 6 cut(s) 208, 370, 399, 583, 1021, 1066
SsiI CCGC 1 cut(s) 1361
SspI AATATT 1 cut(s) 1169
SspMI CTAG 4 cut(s) 444, 552, 1103, 1112
SstI GAGCTC 2 cut(s) 357, 519
StyD4I CCNGG 2 cut(s) 96, 1049
StyI CCWWGG 4 cut(s) 172, 953, 1133, 1400
TaaI ACNGT 4 cut(s) 423, 574, 641, 908
TaiI ACGT 5 cut(s) 339, 538, 936, 1307, 1315
TaqI TCGA 4 cut(s) 368, 766, 937, 1554
TasI AATT 6 cut(s) 208, 370, 399, 583, 1021, 1066
TatI WGTACW 4 cut(s) 21, 704, 973, 1220
Tru1I TTAA 6 cut(s) 198, 207, 342, 402, 960, 1494
Tru9I TTAA 6 cut(s) 198, 207, 342, 402, 960, 1494
TscAI CASTG 5 cut(s) 396, 609, 808, 1014, 1451
TseFI GTSAC 1 cut(s) 635
TseI GCWGC 1 cut(s) 127
Tsp45I GTSAC 1 cut(s) 635
TspDTI ATGAA 7 cut(s) 29, 136, 234, 378, 453, 1476, 1509
TspRI CASTG 5 cut(s) 396, 609, 808, 1014, 1451
Van91I CCANNNNNTGG 1 cut(s) 148
VneI GTGCAC 1 cut(s) 1428
VspI ATTAAT 1 cut(s) 198
XapI RAATTY 2 cut(s) 370, 583
XbaI TCTAGA 1 cut(s) 443
XmiI GTMKAC 2 cut(s) 569, 1301
XmnI GAANNNNTTC 2 cut(s) 583, 933
XspI CTAG 4 cut(s) 444, 552, 1103, 1112
Zsp2I ATGCAT 1 cut(s) 1325
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.